Contacts of the helix formed by residues 206 - 234 (chain C) in PDB entry 2RIB
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with SER 206 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A ARG* 2.8 32.4 + - - -
207C LEU* 1.3 68.5 + - - +
208C ARG* 3.1 6.1 - - - +
209C GLN* 3.2 22.3 + - - +
210C GLN* 3.1 18.5 + - - +
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Residues in contact with LEU 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A LEU* 3.6 39.9 - - + -
208A ARG* 3.6 38.3 - - + +
211A VAL* 3.8 18.6 - - + -
207B LEU* 4.1 14.1 - - + -
206C SER* 1.3 82.8 + - - +
208C ARG* 1.3 56.0 + - - +
210C GLN* 3.1 23.8 + - + +
211C VAL* 2.9 40.1 + - + +
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Residues in contact with ARG 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207B LEU* 3.8 34.4 - - + +
210B GLN* 6.1 1.2 - - - +
206C SER* 3.1 4.2 - - - +
207C LEU* 1.3 79.8 - - - +
209C GLN* 1.3 56.8 + - - +
211C VAL* 3.3 2.6 + - - +
212C GLU* 2.8 60.1 + - + +
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Residues in contact with GLN 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C SER* 3.2 16.8 + - - +
208C ARG* 1.3 79.5 - - - +
210C GLN* 1.3 62.1 + - + +
212C GLU* 3.8 19.1 + - - +
213C ALA* 3.2 22.2 + - + +
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Residues in contact with GLN 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A ARG* 3.0 53.2 + - - +
211A VAL* 4.2 17.6 - - + +
212A GLU* 5.5 4.8 + - - -
215A GLN* 4.8 5.9 + - - +
206C SER* 3.1 11.4 - - - +
207C LEU* 3.1 20.0 - - - +
208C ARG 3.1 0.2 - - - -
209C GLN* 1.3 77.9 - - + +
211C VAL* 1.3 64.2 + - - +
213C ALA* 3.4 6.5 + - - +
214C LEU* 3.3 19.2 + - - +
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Residues in contact with VAL 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A VAL* 3.8 27.1 - - + -
207B LEU* 4.5 11.9 - - + -
210B GLN* 4.1 25.4 - - + +
211B VAL* 4.3 10.3 - - + -
214B LEU* 4.0 20.9 - - + -
207C LEU* 2.9 28.0 + - + +
208C ARG* 3.8 4.9 - - - +
210C GLN* 1.3 74.1 - - - +
212C GLU* 1.3 61.6 + - - +
214C LEU* 3.1 7.3 + - - +
215C GLN* 2.8 40.6 + - + +
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Residues in contact with GLU 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208C ARG* 2.8 41.8 + - - +
209C GLN* 3.8 18.5 + - - +
210C GLN 3.3 0.2 - - - -
211C VAL* 1.3 77.9 - - - +
213C ALA* 1.3 59.9 + - - +
215C GLN* 3.5 19.9 + - - +
216C GLY* 3.2 17.2 + - - -
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Residues in contact with ALA 213 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A GLN* 4.7 9.2 - - - +
209C GLN* 3.2 16.0 + - + +
210C GLN* 3.7 6.7 - - - +
211C VAL 3.2 0.6 - - - -
212C GLU* 1.3 76.3 - - - +
214C LEU* 1.3 65.8 + - - +
216C GLY* 3.3 3.0 + - - -
217C GLN* 3.2 27.9 + - - +
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Residues in contact with LEU 214 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A VAL* 4.2 22.7 - - + +
214A LEU* 3.9 28.9 - - + -
215A GLN* 3.8 26.9 - - + +
218A VAL* 3.8 19.3 - - + -
214B LEU* 3.6 23.6 - - + -
210C GLN 3.3 10.3 + - - +
211C VAL* 3.1 10.4 + - - +
213C ALA* 1.3 77.3 - - - +
215C GLN* 1.3 64.0 + - - +
217C GLN* 3.2 20.2 + - - +
218C VAL* 3.0 31.3 + - + +
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Residues in contact with GLN 215 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210B GLN* 2.7 43.6 + - - +
214B LEU* 3.9 22.3 - - + +
211C VAL* 2.8 30.7 + - + +
212C GLU* 3.5 22.7 - - - +
214C LEU* 1.3 76.0 - - - +
216C GLY* 1.3 63.6 + - - +
218C VAL* 3.3 1.2 + - - +
219C GLN* 2.9 36.8 + - + +
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Residues in contact with GLY 216 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
212C GLU 3.2 11.5 + - - -
213C ALA* 3.3 4.4 + - - -
214C LEU 3.2 0.6 - - - -
215C GLN* 1.3 79.7 - - - +
217C GLN* 1.3 60.7 + - - +
219C GLN* 3.6 5.1 + - - +
220C HIS* 3.1 24.8 + - - +
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Residues in contact with GLN 217 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A GLN* 3.4 24.7 + - - +
218A VAL* 4.1 9.9 - - + +
219A GLN* 3.4 25.8 + - - +
222A GLN* 3.3 30.7 + - - +
213C ALA* 3.2 12.9 + - - +
214C LEU* 3.2 20.4 + - - +
216C GLY* 1.3 73.9 - - - +
218C VAL* 1.3 59.1 + - - +
220C HIS* 3.4 6.0 + - - +
221C LEU* 2.9 32.6 + - - +
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Residues in contact with VAL 218 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A VAL* 4.0 26.7 - - + -
214B LEU* 3.8 17.7 - - + -
217B GLN* 3.8 38.4 - - + +
218B VAL* 4.1 9.2 - - + -
221B LEU* 4.4 11.2 - - + -
214C LEU* 3.0 23.1 + - + +
215C GLN 3.8 2.9 - - - +
217C GLN* 1.3 74.7 - - - +
219C GLN* 1.3 63.0 + - - +
221C LEU* 3.2 9.0 + - - +
222C GLN* 2.9 31.8 + - - +
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Residues in contact with GLN 219 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214B LEU* 5.0 2.4 - - - +
217B GLN* 3.2 34.5 + - - +
215C GLN* 2.9 28.7 + - + +
216C GLY* 4.0 5.2 - - - +
218C VAL* 1.3 81.8 - - - +
220C HIS* 1.3 63.0 + - - +
222C GLN* 3.4 19.3 + - - +
223C ALA* 3.2 21.7 + - - +
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Residues in contact with HIS 220 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242A GLU* 5.2 7.2 + - - -
216C GLY 3.1 18.3 + - - +
217C GLN* 3.8 5.6 - - - +
219C GLN* 1.3 76.4 - - - +
221C LEU* 1.3 59.7 + - - +
223C ALA* 3.2 8.7 + - + +
224C ALA* 2.9 39.5 + - + +
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Residues in contact with LEU 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
218A VAL* 4.2 14.8 - - + -
221A LEU* 3.8 33.2 - - + -
222A GLN* 3.9 31.9 - - + -
225A PHE* 4.0 36.3 - - + -
221B LEU* 4.1 12.8 - - + -
217C GLN 2.9 17.4 + - - +
218C VAL* 3.2 6.7 + - + +
220C HIS* 1.3 78.7 + - - +
222C GLN* 1.3 53.5 + - - +
224C ALA* 3.9 3.3 - - + +
225C PHE* 2.7 40.0 + - + +
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Residues in contact with GLN 222 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
217B GLN* 3.2 42.5 + - - +
220B HIS* 5.7 4.1 - - + -
221B LEU* 4.0 27.1 - - + +
218C VAL* 2.9 17.9 + - + +
219C GLN* 3.7 24.4 + - - +
221C LEU* 1.3 76.2 - - - +
223C ALA* 1.3 57.8 + - - +
225C PHE* 4.0 1.6 - - - +
226C SER* 3.0 29.5 + - - -
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Residues in contact with ALA 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219C GLN 3.2 9.4 + - - +
220C HIS* 3.2 11.8 + - + +
222C GLN* 1.3 77.4 - - - +
224C ALA* 1.3 66.5 + - - +
226C SER* 3.4 6.0 + - - -
227C GLN* 3.1 23.0 + - - +
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Residues in contact with ALA 224 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A PHE* 3.6 24.3 - - + -
229A LYS* 5.0 9.3 + - - +
220C HIS* 2.9 32.2 + - + +
221C LEU* 3.9 6.3 - - + +
223C ALA* 1.3 78.3 - - - +
225C PHE* 1.3 57.8 + - - +
227C GLN* 3.4 12.0 + - - +
228C TYR* 3.0 28.9 + - - +
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Residues in contact with PHE 225 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A PHE* 3.9 22.1 - + + -
220B HIS* 5.8 2.0 - - - -
221B LEU* 4.1 22.4 - - + -
224B ALA* 3.5 42.8 - - + -
225B PHE* 3.8 24.9 - + + -
228B TYR* 3.8 5.2 - + + -
221C LEU* 2.7 23.5 + - + +
222C GLN 4.0 3.1 - - - +
224C ALA* 1.3 72.4 - - - +
226C SER* 1.3 58.8 + - - +
228C TYR* 3.1 28.4 + + - +
229C LYS* 2.9 66.6 + - + +
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Residues in contact with SER 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222C GLN 3.0 19.7 + - - -
223C ALA* 3.7 6.3 - - - -
225C PHE* 1.3 78.2 - - - +
227C GLN* 1.3 63.5 + - - +
229C LYS* 3.3 30.1 + - - +
230C LYS* 3.5 20.6 + - - +
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Residues in contact with GLN 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
229A LYS* 4.3 10.4 + - - -
242A GLU 2.9 27.5 + - - +
244A ILE* 3.6 28.4 - - + +
355A PHE* 3.0 39.6 + - + +
223C ALA 3.1 13.2 + - - +
224C ALA* 3.6 12.1 - - - +
226C SER* 1.3 76.2 - - - +
228C TYR* 1.3 62.7 + - - +
230C LYS* 3.2 23.1 + - - +
231C VAL* 3.2 16.3 + - - +
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Residues in contact with TYR 228 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
225A PHE* 3.7 22.4 - + + -
228A TYR* 4.4 6.8 - - + +
229A LYS* 4.8 13.0 - - + -
232A GLU* 3.8 27.8 - - + -
244A ILE* 5.4 2.7 - - + -
225B PHE* 5.0 7.2 - + - -
228B TYR* 3.5 42.2 + + + +
229B LYS* 5.0 0.3 - - - -
232B GLU* 2.6 33.2 + - - +
224C ALA 3.0 17.7 + - - +
225C PHE* 3.1 35.0 + + - +
227C GLN* 1.3 76.0 - - - +
229C LYS* 1.3 67.5 + - - +
231C VAL* 3.2 8.9 + - - +
232C GLU* 2.9 24.9 + - + +
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Residues in contact with LYS 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
220B HIS* 5.7 4.6 + - - -
224B ALA* 5.5 1.2 - - + +
228B TYR* 3.6 38.6 + - + +
225C PHE* 2.9 50.2 + - + +
226C SER* 3.6 26.5 + - - +
227C GLN 3.2 0.4 - - - -
228C TYR* 1.3 80.4 - - + +
230C LYS* 1.3 64.0 + - + +
232C GLU* 3.3 1.7 + - - +
233C LEU* 3.1 30.9 + - + +
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Residues in contact with LYS 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
264A ALA* 3.8 20.7 - - - +
265A GLY* 2.9 33.6 + - - +
355A PHE* 3.9 26.3 + - + +
226C SER* 3.6 18.2 - - - +
227C GLN* 3.2 14.2 + - - +
229C LYS* 1.3 77.7 - - + +
231C VAL* 1.3 64.1 + - - +
233C LEU* 3.4 7.1 + - - +
234C PHE* 3.2 24.3 + - - +
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Residues in contact with VAL 231 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A GLU* 3.7 20.0 - - + +
233A LEU* 4.4 5.8 - - + -
244A ILE* 3.9 37.2 - - + -
246A LYS* 2.8 45.1 + - + +
355A PHE* 3.8 31.6 - - + -
227C GLN 3.3 14.8 - - - +
228C TYR* 3.2 8.7 + - + +
230C LYS* 1.3 77.0 - - - +
232C GLU* 1.3 60.7 + - - +
234C PHE* 3.2 8.7 + - - +
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Residues in contact with GLU 232 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232A GLU* 2.3 41.8 + - - +
246A LYS* 3.7 7.5 + - - -
228B TYR* 3.9 25.8 - - + -
231B VAL* 3.5 16.6 - - + +
232B GLU* 3.4 21.8 - - - +
228C TYR* 2.9 23.3 + - + +
229C LYS 3.7 3.8 - - - +
230C LYS 3.3 0.2 - - - -
231C VAL* 1.3 79.0 - - - +
233C LEU* 1.3 62.5 + - - +
234C PHE 3.3 1.9 + - - +
236C ASN 5.2 1.2 + - - -
237C GLY* 5.0 1.4 + - - -
246C LYS* 2.8 33.9 + - - +
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Residues in contact with LEU 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
228B TYR* 3.5 29.6 - - + +
231B VAL* 4.8 3.1 - - + -
229C LYS* 3.1 18.5 + - + +
230C LYS* 4.1 6.1 - - - +
231C VAL 3.4 0.2 - - - -
232C GLU* 1.3 79.5 - - + +
234C PHE* 1.3 57.4 + - - +
235C PRO* 3.4 1.4 - - - +
236C ASN 3.3 2.9 + - - -
237C GLY* 2.8 50.7 + - - +
238C GLN* 4.3 1.3 - - - +
239C SER* 3.6 27.4 - - - +
244C ILE* 3.9 28.5 - - + -
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Residues in contact with PHE 234 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246A LYS* 2.6 68.1 + - + -
247A THR 4.1 0.4 - - - -
248A ALA* 3.6 33.2 - - + -
260A LEU* 4.4 20.6 - - + -
264A ALA* 3.8 21.5 - - + -
351A VAL* 4.1 5.6 - - + -
353A CYS* 3.2 26.0 - - - -
355A PHE* 3.8 24.0 - + + -
230C LYS 3.2 15.9 + - - +
231C VAL 3.8 2.7 - - - +
232C GLU 3.2 1.7 - - - -
233C LEU* 1.3 78.7 - - - +
235C PRO* 1.3 72.8 - - + +
236C ASN 3.6 0.9 - - - -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il